Sphingosinicella cucumeris sp. nov., isolated from soil of a cucumber garden

• Published in: Antonie van Leeuwenhoek 2015-11, Vol.108 (5), p.1181-1188
• Main Authors: Akter, Shahina, Du, Juan, Won, KyungHwa, Yin, Chang Shik, Kook, MooChang, Yi, Tae-Hoo
• Format: Article
• Language: English
• Subjects: Bacteria; Base Composition; Biomedical and Life Sciences; Cucumis sativus - microbiology; DNA, Bacterial; Fatty Acids - chemistry; Gardens & gardening; Life Sciences; Lipids; Lipids - chemistry; Medical Microbiology; Microbiology; Original Paper; Phylogeny; Plant Sciences; Ribonucleic acid; RNA; RNA, Ribosomal, 16S - genetics; Sequence Analysis, DNA; Soil Microbiology; Soil Science & Conservation; Sphingomonadaceae - chemistry; Sphingomonadaceae - classification; Sphingomonadaceae - isolation & purification; Sphingomonadaceae - physiology; Vermicomposting
• ISSN: 0003-6072; 1572-9699
• DOI: 10.1007/s10482-015-0572-6

A novel bacterial strain, THG-sc1 T , was isolated from a soil sample of a cucumber garden and was characterised by using a polyphasic approach. Cells were observed to be Gram-stain negative, non-motile and rod-shaped. The strain was found to be aerobic, catalase and oxidase positive, esculin and starch negative, and to have an optimum growth temperature and pH of 28 °C and 7.5, respectively. On the basis of 16S rRNA gene sequence analysis, strain THG-sc1 T was found to belong to the genus Sphingosinicella and to be closely related to Sphingosinicella vermicomposti KCTC 22446 T , followed by Sphingosinicella xenopeptidilytica DSM 17130 T and Sphingosinicella microcystinivorans KCTC 12019 T . The DNA G+C content was determined to be 60.8 mol% and the predominant respiratory quinone was identified as ubiquinone-10. The major polyamine was found to be sym -homospermidine. The major polar lipids were identified as sphingoglycolipid, phosphatidylethanolamine, phosphatidylglycerol and an unidentified phospholipid. The major fatty acids were identified as C 18:1 ω 7 c , C 16:0 and summed feature 3 (C 16:1 ω 7 c and/or iso-C 15:0 2-OH, as defined by MIDI). The results of the genotypic analysis, in combination with chemotaxonomic and physiological data, demonstrated that strain THG-sc1 T represents a novel species within the genus Sphingosinicella , for which the name Sphingosinicella cucumeris is proposed. The type strain is THG-sc1 T (=KACC 18279 T  = CCTCC AB 2015120 T ).